5-neuron-model of neocortex for producing realistic extracellular AP shapes (Van Dijck et al. 2012)

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Accession:226812
This is a 5-neuron model of neocortex, containing one tufted layer-5 pyramidal cell, two non-tufted pyramidal cells, and two inhibitory interneurons. It was used to reproduce extracellular spike shapes in a study comparing algorithms for spike sorting and electrode selection. The neuron models are adapted from Dyhrfjeld-Johnsen et al. (2005).
Reference:
1 . Van Dijck G, Seidl K, Paul O, Ruther P, Van Hulle MM, Maex R (2012) Enhancing the yield of high-density electrode arrays through automated electrode selection. Int J Neural Syst 22:1-19 [PubMed]
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Model Information (Click on a link to find other models with that property)
Model Type: Extracellular; Neuron or other electrically excitable cell; Realistic Network;
Brain Region(s)/Organism:
Cell Type(s): Neocortex U1 L5B pyramidal pyramidal tract GLU cell; Neocortex U1 L2/6 pyramidal intratelencephalic GLU cell;
Channel(s):
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: GENESIS;
Model Concept(s):
Implementer(s): Maex, Reinoud [reinoud at bbf.uia.ac.be];
Search NeuronDB for information about:  Neocortex U1 L5B pyramidal pyramidal tract GLU cell; Neocortex U1 L2/6 pyramidal intratelencephalic GLU cell;
echo making windows for xcell

//Display of Vm in all compartments of layer 5 pyramidal cell morphology


create xform /cellform [0%, 0%, 40%, 80%]
create xdraw /cellform/draw [0,0,100%,100%]
setfield /cellform/draw xmin -2.5e-4 xmax 2.5e-4 \
                        ymin -8.0e-4 ymax 12.0e-4 \
                        zmin -20e-5 zmax 50e-6 bg white transform y
xshow /cellform

//create xcell /cellform/draw/cell
//setfield /cellform/draw/cell colmin -0.1 colmax 0.05 path /L5P/##[TYPE=compartment] field Vm
//useclock /cellform/draw/cell 1

xcolorscale hot


function add_xcell (pathname)

	str pathname

	create xcell /cellform/draw{pathname}
	setfield /cellform/draw{pathname} colmin -0.1 colmax 0.05 path {pathname}/##[TYPE=compartment] field Vm
	useclock /cellform/draw{pathname} 1

end